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- PDB-6uw7: The crystal structure of FbiA from Mycobacterium smegmatis, Dehyd... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6uw7 | ||||||||||||
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Title | The crystal structure of FbiA from Mycobacterium smegmatis, Dehydro-F420-0 bound form | ||||||||||||
![]() | Phosphoenolpyruvate transferase | ||||||||||||
![]() | BIOSYNTHETIC PROTEIN / Factor 420 / Phosphotransferase / Metalloenzyme | ||||||||||||
Function / homology | ![]() 2-phospho-L-lactate transferase / LPPG:FO 2-phospho-L-lactate transferase activity / magnesium ion binding Similarity search - Function | ||||||||||||
Biological species | ![]() | ||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||
![]() | Grinter, R. / Gillett, D. / Cordero, P.R.F. / Izore, T. / Greening, C. | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Cellular and Structural Basis of Synthesis of the Unique Intermediate Dehydro-F420-0 in Mycobacteria. Authors: Grinter, R. / Ney, B. / Brammananth, R. / Barlow, C.K. / Cordero, P.R.F. / Gillett, D.L. / Izore, T. / Cryle, M.J. / Harold, L.K. / Cook, G.M. / Taiaroa, G. / Williamson, D.A. / Warden, A.C. ...Authors: Grinter, R. / Ney, B. / Brammananth, R. / Barlow, C.K. / Cordero, P.R.F. / Gillett, D.L. / Izore, T. / Cryle, M.J. / Harold, L.K. / Cook, G.M. / Taiaroa, G. / Williamson, D.A. / Warden, A.C. / Oakeshott, J.G. / Taylor, M.C. / Crellin, P.K. / Jackson, C.J. / Schittenhelm, R.B. / Coppel, R.L. / Greening, C. | ||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 252.2 KB | Display | ![]() |
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PDB format | ![]() | 200.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 358.5 KB | Display | ![]() |
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Full document | ![]() | 359.2 KB | Display | |
Data in XML | ![]() | 2.1 KB | Display | |
Data in CIF | ![]() | 9.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6uvxC ![]() 6uw1C ![]() 6uw3C ![]() 6uw5C ![]() 3c3dS C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 34790.613 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: ATCC 700084 / mc(2)155 / Gene: fbiA, MSMEG_1830, MSMEI_1787 Production host: ![]() References: UniProt: A0QTG2, 2-phospho-L-lactate transferase #2: Chemical | #3: Chemical | ChemComp-QMD / | #4: Chemical | #5: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.18 Å3/Da / Density % sol: 43.61 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / Details: 18 % PEG6000, 0.1 M Tris, 0.2 M Calcium Acetate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Oct 9, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.987 Å / Relative weight: 1 |
Reflection | Resolution: 2.34→45.843 Å / Num. obs: 25198 / % possible obs: 99.4 % / Redundancy: 7 % / CC1/2: 0.996 / Rmerge(I) obs: 0.124 / Rpim(I) all: 0.054 / Net I/σ(I): 12.2 |
Reflection shell | Resolution: 2.34→2.42 Å / Rmerge(I) obs: 0.573 / Mean I/σ(I) obs: 3.7 / Num. unique obs: 2331 / CC1/2: 0.857 / Rpim(I) all: 0.252 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3C3D Resolution: 2.342→45.843 Å / SU ML: 0.27 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 22.02 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 96.26 Å2 / Biso mean: 29.9576 Å2 / Biso min: 11.01 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.342→45.843 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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